Khnyn (KH and NYN domain containing) - Rat Genome Database

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Gene: Khnyn (KH and NYN domain containing) Rattus norvegicus
Analyze
Symbol: Khnyn
Name: KH and NYN domain containing
RGD ID: 1565688
Description: Predicted to enable RNA endonuclease activity and mRNA binding activity. Predicted to be active in cytoplasmic ribonucleoprotein granule and nucleus. Orthologous to human KHNYN (KH and NYN domain containing); INTERACTS WITH (+)-schisandrin B; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: KH and NYN domain containing, pseudogene 1; Khnyn-ps1; LOC498517; RGD1565688; similar to mKIAA0323 protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81533,335,290 - 33,349,553 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1533,335,274 - 33,349,552 (+)EnsemblGRCr8
mRatBN7.21529,365,399 - 29,379,650 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1529,365,260 - 29,376,967 (+)EnsemblmRatBN7.2
Rnor_6.01534,551,570 - 34,563,729 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1534,552,410 - 34,561,727 (+)Ensemblrn6Rnor6.0
Rnor_5.01538,439,886 - 38,453,708 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41534,007,904 - 34,040,500 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1528,939,031 - 28,951,631 (+)NCBICelera
Cytogenetic Map15p13NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Khnyn
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81533,335,290 - 33,349,553 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1533,335,274 - 33,349,552 (+)EnsemblGRCr8
mRatBN7.21529,365,399 - 29,379,650 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1529,365,260 - 29,376,967 (+)EnsemblmRatBN7.2
Rnor_6.01534,551,570 - 34,563,729 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1534,552,410 - 34,561,727 (+)Ensemblrn6Rnor6.0
Rnor_5.01538,439,886 - 38,453,708 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41534,007,904 - 34,040,500 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1528,939,031 - 28,951,631 (+)NCBICelera
Cytogenetic Map15p13NCBI
KHNYN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381424,423,165 - 24,441,843 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1424,423,052 - 24,441,843 (+)Ensemblhg38GRCh38
GRCh371424,898,492 - 24,911,049 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361423,968,981 - 23,980,388 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341423,969,015 - 23,980,380NCBI
Celera144,763,777 - 4,775,184 (+)NCBICelera
Cytogenetic Map14q12NCBI
HuRef145,013,796 - 5,025,205 (+)NCBIHuRef
CHM1_11424,897,714 - 24,909,123 (+)NCBICHM1_1
T2T-CHM13v2.01418,621,854 - 18,640,575 (+)NCBIT2T-CHM13v2.0
Sdr39u1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391456,134,742 - 56,137,802 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1456,134,740 - 56,137,750 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381455,897,283 - 55,900,342 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1455,884,947 - 55,898,775 (+)Ensemblmm10GRCm38
MGSCv371456,503,806 - 56,515,618 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361454,839,040 - 54,850,852 (+)NCBIMGSCv36mm8
Celera1453,688,754 - 53,700,503 (+)NCBICelera
Cytogenetic Map14C3NCBI
cM Map1428.19NCBI
Khnyn
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540935,872,087 - 35,879,565 (-)Ensembl
ChiLan1.0NW_00495540935,871,214 - 35,880,233 (-)NCBIChiLan1.0ChiLan1.0
KHNYN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21525,784,267 - 25,793,374 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11425,000,510 - 25,009,868 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0145,205,650 - 5,216,436 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11423,328,835 - 23,340,957 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1423,329,932 - 23,340,966 (+)EnsemblpanPan2panpan1.1
KHNYN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.184,402,719 - 4,411,688 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl84,403,201 - 4,411,598 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha84,315,953 - 4,333,389 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.084,503,588 - 4,523,336 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl84,514,475 - 4,523,334 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.184,193,020 - 4,212,669 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.084,255,640 - 4,275,355 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.084,517,825 - 4,537,560 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Khnyn
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864036,264,142 - 36,272,967 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936722116,611 - 124,832 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936722116,025 - 124,890 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KHNYN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl774,854,379 - 74,874,882 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1774,854,209 - 74,872,491 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2780,125,232 - 80,136,080 (-)NCBISscrofa10.2Sscrofa10.2susScr3
KHNYN
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1241,412,264 - 1,420,960 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl241,413,306 - 1,419,852 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366603613,098,182 - 13,110,195 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Khnyn
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248208,075,413 - 8,084,232 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248208,074,069 - 8,084,817 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Khnyn
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11269,126,457 - 69,136,802 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Khnyn
79 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:114
Count of miRNA genes:90
Interacting mature miRNAs:94
Transcripts:ENSRNOT00000027802
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)15231575947315759Rat
5684946Bss98Bone structure and strength QTL 983.90.0026tibia strength trait (VT:1000284)tibia ultimate force (CMO:0001734)15139411584Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15144836456Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15231575953331089Rat
152025253Hrtrt24Heart rate QTL 243.82heart pumping trait (VT:2000009)153185580392671517Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152852773273527732Rat
10755503Bp391Blood pressure QTL 3912.37arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)152272835342072050Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1525285835104695021Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)152233635152597086Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)1525285835104695021Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151915576287086765Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)15278592347785923Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151492659471614418Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)152233635167336351Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)1525285835104695021Rat

Markers in Region
RH131496  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21529,354,927 - 29,355,107 (+)MAPPERmRatBN7.2
Rnor_6.01534,541,384 - 34,541,563NCBIRnor6.0
Rnor_5.01538,429,682 - 38,429,861UniSTSRnor5.0
RGSC_v3.41534,019,591 - 34,019,770UniSTSRGSC3.4
Celera1528,928,658 - 28,928,837UniSTS
RH 3.4 Map15260.69UniSTS
Cytogenetic Map15p13UniSTS
BE114514  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21529,375,875 - 29,376,054 (+)MAPPERmRatBN7.2
Rnor_6.01534,561,636 - 34,561,814NCBIRnor6.0
Rnor_5.01538,449,934 - 38,450,112UniSTSRnor5.0
RGSC_v3.41534,040,266 - 34,040,444UniSTSRGSC3.4
Celera1528,949,538 - 28,949,716UniSTS
RH 3.4 Map15260.81UniSTS
Cytogenetic Map15p13UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 163 91 90 59 92 59 6 356 192 11 142 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000027802   ⟹   ENSRNOP00000027802
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1533,335,274 - 33,349,552 (+)Ensembl
mRatBN7.2 Ensembl1529,365,260 - 29,376,967 (+)Ensembl
Rnor_6.0 Ensembl1534,552,410 - 34,561,727 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000152048   ⟹   ENSRNOP00000110492
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1533,335,274 - 33,349,552 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000161868   ⟹   ENSRNOP00000107571
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1533,335,580 - 33,349,552 (+)Ensembl
RefSeq Acc Id: NM_001427600   ⟹   NP_001414529
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81533,335,290 - 33,349,553 (+)NCBI
RefSeq Acc Id: XM_063274550   ⟹   XP_063130620
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81533,335,832 - 33,349,553 (+)NCBI
RefSeq Acc Id: XM_063274551   ⟹   XP_063130621
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81533,335,832 - 33,344,795 (+)NCBI
RefSeq Acc Id: XR_010057844
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81533,335,832 - 33,349,553 (+)NCBI
RefSeq Acc Id: XR_010057845
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81533,335,832 - 33,345,647 (+)NCBI
RefSeq Acc Id: XR_010057846
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81533,335,832 - 33,344,904 (+)NCBI
RefSeq Acc Id: XR_010057847
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81533,335,832 - 33,344,909 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001414529 (Get FASTA)   NCBI Sequence Viewer  
  XP_063130620 (Get FASTA)   NCBI Sequence Viewer  
  XP_063130621 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000027802
  ENSRNOP00000027802.6
  ENSRNOP00000107571
  ENSRNOP00000107571.1
  ENSRNOP00000110492.1
Ensembl Acc Id: ENSRNOP00000027802   ⟸   ENSRNOT00000027802
RefSeq Acc Id: NP_001414529   ⟸   NM_001427600
- UniProtKB: D3Z8M3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063130620   ⟸   XM_063274550
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063130621   ⟸   XM_063274551
- Peptide Label: isoform X2
Ensembl Acc Id: ENSRNOP00000107571   ⟸   ENSRNOT00000161868
Ensembl Acc Id: ENSRNOP00000110492   ⟸   ENSRNOT00000152048
Protein Domains
N4BP1 C-terminal UBA   N4BP1 first type I KH-domain   N4BP1 second type I KH-domain   RNase NYN

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3Z8M3-F1-model_v2 AlphaFold D3Z8M3 1-675 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1565688 AgrOrtholog
BioCyc Gene G2FUF-13677 BioCyc
Ensembl Genes ENSRNOG00000020506 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000027802 ENTREZGENE
  ENSRNOT00000027802.8 UniProtKB/TrEMBL
  ENSRNOT00000152048.1 UniProtKB/TrEMBL
  ENSRNOT00000161868 ENTREZGENE
  ENSRNOT00000161868.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.11980 UniProtKB/TrEMBL
InterPro KH_N4BP1_1st UniProtKB/TrEMBL
  KH_N4BP1_2nd UniProtKB/TrEMBL
  RNase_Zc3h12 UniProtKB/TrEMBL
  UBA_N4BP1_C UniProtKB/TrEMBL
  ZC3H12/N4BP1_RNase_Reg UniProtKB/TrEMBL
NCBI Gene 498517 ENTREZGENE
PANTHER N4BP1-RELATED UniProtKB/TrEMBL
  PROTEIN KHNYN UniProtKB/TrEMBL
Pfam KH_N4BP1_1st UniProtKB/TrEMBL
  KH_N4BP1_2nd UniProtKB/TrEMBL
  RNase_Zc3h12a UniProtKB/TrEMBL
  UBA_N4BP1_C UniProtKB/TrEMBL
PhenoGen Khnyn PhenoGen
RatGTEx ENSRNOG00000020506 RatGTEx
UniProt A0ABK0LZS8_RAT UniProtKB/TrEMBL
  A0ABK0M162_RAT UniProtKB/TrEMBL
  D3Z8M3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-03-05 Khnyn  KH and NYN domain containing  Khnyn-ps1  KH and NYN domain containing, pseudogene 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-06-08 Khnyn-ps1  KH and NYN domain containing, pseudogene 1  Khnyn  KH and NYN domain containing  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-25 Khnyn  KH and NYN domain containing  RGD1565688  similar to mKIAA0323 protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1565688  similar to mKIAA0323 protein   RGD1565688_predicted  similar to mKIAA0323 protein (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1565688_predicted  similar to mKIAA0323 protein (predicted)  LOC498517  similar to mKIAA0323 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC498517  similar to mKIAA0323 protein      Symbol and Name status set to provisional 70820 PROVISIONAL